genome.fa.s7999.2.7.7.80.10.50.1000.33.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   

This is table  33  of  50  ( 5918 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8090616--8090664	17	2.9	17	76	8	55	6	24	51	18	1.69
8090604--8090648	22	2.0	22	95	0	81	8	24	51	15	1.72
8090660--8090718	19	3.2	19	83	9	77	28	28	27	15	1.96
8090660--8090718	9	6.3	9	80	7	64	28	28	27	15	1.96
8097151--8097299	74	2.0	74	96	0	271	40	20	14	24	1.90
8102336--8102446	31	3.6	31	81	2	143	28	16	21	33	1.95
8103075--8103201	62	2.0	62	96	0	236	37	22	7	31	1.83
8107132--8107168	13	2.6	14	91	8	58	72	0	0	27	0.84
8107327--8107395	30	2.3	30	97	0	129	23	27	14	34	1.94
8108510--8109166	36	18.0	36	89	4	978	28	18	17	35	1.94
8113246--8113388	20	7.2	20	83	1	171	37	17	18	26	1.93
8120662--8120699	13	2.8	13	92	8	58	76	5	0	18	0.97
8121810--8121860	2	26.0	2	90	4	77	50	0	0	49	1.00
8122045--8122085	18	2.3	19	80	16	52	58	4	4	31	1.40
8122567--8122638	30	2.4	30	97	0	135	26	1	30	41	1.64
8122985--8123066	42	2.0	42	92	0	137	36	1	8	53	1.39
8123280--8123338	23	2.6	23	78	13	59	42	3	1	52	1.28
8123416--8123461	19	2.4	19	85	7	58	45	0	2	52	1.13
8123422--8123483	30	2.2	27	83	13	72	46	1	3	48	1.28
8124328--8124361	16	2.1	17	88	5	52	14	11	5	67	1.39
8124321--8124362	17	2.5	17	80	7	50	14	9	4	71	1.28
8130453--8130530	38	2.0	40	92	5	133	43	10	8	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8133142--8133202	3	19.7	3	76	6	59	31	3	1	63	1.20
8133149--8133186	19	2.0	19	89	0	58	28	2	2	65	1.19
8133140--8133202	25	2.5	25	84	5	74	31	3	1	63	1.19
8136939--8136988	26	1.9	26	88	8	75	34	16	18	32	1.92
8138085--8138153	23	3.0	23	73	0	75	33	23	23	20	1.97
8138542--8138576	2	17.5	2	100	0	70	48	0	0	51	1.00
8139738--8139815	20	3.8	20	75	18	70	24	25	19	30	1.98
8143420--8143543	59	2.1	60	82	7	146	41	1	10	46	1.48
8144830--8144892	25	2.5	24	90	10	99	55	3	0	41	1.16
8144904--8144937	2	17.0	2	100	0	68	50	0	0	50	1.00
8145984--8146049	2	33.0	2	100	0	132	50	0	0	50	1.00
8153344--8153389	21	2.2	21	84	3	58	13	15	26	45	1.82
8154106--8154166	32	1.9	32	86	0	86	26	11	18	44	1.83
8155635--8155693	28	2.1	27	90	3	91	37	27	20	15	1.92
8159879--8159945	35	1.9	35	96	0	125	41	23	1	32	1.64
8161106--8161134	2	14.5	2	100	0	58	51	0	0	48	1.00
8175696--8175778	29	2.8	29	92	1	139	43	9	14	32	1.78
8180459--8180541	29	2.8	29	92	1	139	43	9	14	32	1.78
8184570--8184646	30	2.5	31	81	10	86	29	10	6	53	1.60
8187903--8187951	21	2.4	22	83	10	59	42	18	2	36	1.62
8189369--8189430	6	10.3	6	94	5	108	50	0	33	16	1.45
8190692--8190734	12	3.8	12	76	17	56	27	20	9	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8190687--8190736	21	2.4	21	96	0	91	26	20	10	44	1.82
8195700--8195727	12	2.3	12	100	0	56	14	25	42	17	1.87
8195694--8195743	19	2.6	19	78	18	59	20	26	38	16	1.92
8195772--8195829	20	2.9	20	89	0	89	36	29	18	15	1.92
8195772--8195828	9	5.9	9	75	15	51	36	29	19	14	1.91
8202951--8203008	19	3.1	18	82	9	62	27	24	25	22	2.00
8204994--8205043	21	2.4	21	89	0	73	38	30	12	20	1.88
8205584--8205635	19	2.5	22	81	9	65	25	30	17	26	1.97
8206320--8206355	3	12.3	3	88	5	56	36	0	0	63	0.94
8208841--8208889	24	2.0	24	100	0	98	48	4	4	42	1.40
8213525--8213562	9	4.3	9	83	6	51	86	0	13	0	0.56
8213525--8213585	8	7.4	8	87	7	70	81	0	13	4	0.83
8215110--8215167	28	2.1	28	93	6	100	24	24	29	22	1.99
8215670--8215718	20	2.5	20	96	0	89	32	14	24	28	1.94
8216406--8216469	20	3.2	20	64	24	53	31	14	10	43	1.79
8216479--8216547	23	3.3	23	61	23	60	34	14	11	39	1.82
8216387--8216874	40	12.2	40	93	0	787	29	16	12	41	1.85
8216866--8216971	36	2.9	36	85	4	131	19	17	13	49	1.80
8216941--8217008	36	1.9	35	87	0	91	23	20	14	41	1.89
8216952--8217068	60	2.0	60	89	6	184	26	19	15	38	1.91
8217012--8217126	36	3.2	35	79	9	106	26	20	14	39	1.91
8217146--8217232	28	3.0	29	81	9	115	29	13	14	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8217203--8217425	60	3.7	60	86	1	286	31	16	12	39	1.86
8217699--8217756	19	3.0	20	68	14	57	44	12	24	18	1.84
8217699--8217762	20	3.2	20	68	12	60	40	12	23	23	1.88
8217778--8218257	136	3.6	135	89	2	684	34	15	21	28	1.94
8218195--8218487	117	2.6	114	84	7	352	39	14	20	24	1.90
8219370--8219428	2	29.5	2	100	0	118	49	0	0	50	1.00
8220273--8220355	39	2.2	39	89	6	125	30	0	31	38	1.58
8227024--8227094	22	3.3	23	70	18	71	33	22	19	23	1.97
8226989--8227095	43	2.5	43	84	6	137	33	21	18	26	1.96
8227707--8227740	17	1.9	17	88	5	50	73	2	17	5	1.16
8229674--8229712	20	2.0	20	89	0	60	17	38	20	23	1.93
8230165--8230232	31	2.1	32	86	5	93	30	13	30	25	1.93
8236305--8236392	29	3.0	29	77	6	79	36	23	3	36	1.72
8239256--8239287	6	5.3	6	100	0	64	34	46	18	0	1.49
8248382--8248718	55	6.1	54	82	8	303	31	22	16	28	1.96
8248417--8248718	165	1.8	165	85	8	427	31	22	17	29	1.96
8248403--8248718	110	2.9	109	84	6	406	30	23	17	28	1.97
8250015--8250172	7	22.6	7	72	14	80	8	15	0	75	1.02
8250016--8250170	33	4.6	35	78	17	143	8	15	0	76	1.02
8250019--8250177	8	20.2	8	78	19	110	8	15	0	75	1.03
8250053--8250177	7	17.4	7	79	20	86	9	14	0	76	1.03
8250033--8250170	33	4.5	31	81	18	155	8	15	0	76	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8250062--8250180	59	2.0	58	84	7	152	9	15	0	75	1.03
8253598--8253648	3	16.0	3	84	15	59	35	0	0	64	0.94
8255476--8255511	17	2.3	15	90	9	54	61	0	2	36	1.11
8262286--8262618	114	2.9	113	91	1	549	33	15	18	32	1.92
8264614--8264751	54	2.6	54	90	0	204	34	14	21	28	1.93
8265139--8265193	22	2.5	22	84	0	74	34	9	14	41	1.77
8265702--8266026	167	2.0	164	91	3	526	34	14	13	38	1.84
8265904--8266456	184	3.0	184	97	0	1043	32	15	14	37	1.88
8266397--8267083	76	9.0	76	96	0	1257	23	21	21	33	1.97
8267241--8267303	3	20.0	3	81	12	65	38	0	0	61	0.96
8267241--8267315	24	3.0	24	78	12	89	41	0	0	58	0.98
8268625--8268674	15	3.3	15	73	15	50	28	6	0	66	1.15
8268742--8268774	15	2.3	15	89	5	50	42	0	0	57	0.98
8269140--8269175	17	2.3	15	90	9	54	61	0	2	36	1.11
8278577--8278661	42	2.0	42	97	0	161	14	12	30	42	1.83
8280670--8280722	21	2.5	21	84	0	70	20	22	18	37	1.94
8280712--8280824	20	5.7	20	94	0	199	39	20	19	20	1.92
8280811--8280857	20	2.3	20	92	0	76	31	27	19	21	1.97
8284134--8284222	20	4.4	21	86	8	123	35	24	21	17	1.95
8284194--8284289	33	2.8	33	87	3	129	43	19	22	13	1.86
8284324--8284412	14	5.6	14	68	23	52	13	24	17	43	1.85
8284305--8284421	33	3.5	33	92	1	189	13	23	17	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8284538--8284574	14	2.6	14	86	0	56	48	21	0	29	1.50
8285974--8286065	42	2.2	42	80	3	105	23	17	38	20	1.93
8286550--8286654	20	5.2	20	92	0	156	38	21	20	20	1.94
8286545--8286673	60	2.3	54	81	10	150	41	20	19	18	1.91
8286554--8286673	40	3.2	38	86	6	149	40	20	20	19	1.92
8286699--8286875	20	9.5	20	76	16	130	19	19	19	41	1.91
8288772--8288821	20	2.5	20	93	0	82	50	24	14	12	1.76
8288793--8288863	33	2.1	34	84	7	92	45	25	18	11	1.82
8289181--8289246	22	3.0	22	86	8	98	21	12	37	28	1.89
8289443--8289575	20	6.7	20	91	0	203	20	18	20	41	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50